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QGRS-H Predictor: Sequence Input

Sequence Input


The goal of QGRS-H Predictor is to map and analyze phylogenetically conserved putative Quadruplex forming 'G'-Rich Sequences (QGRS) in the mRNAs, ncRNAs and other nucleotide sequences -e.g. Promoter and Telomeric and gene flank regions. The putative G-quadruplexes are identified using the following motif:

Where x = # guanine tetrads in the G-quadruplex and y1, y2, y3 = length of gaps

QGRS-H Predictor web tool generates information on composition and distribution of putative homologous G-quadruplexes in semi-globally aligned nucleotide sequences based on published algorithms.

Enter 2 sequences in the input area to the left to run an analysis. You may enter RefSeq mRNA Accession or GI#'s and the application will automatically retrieve the sequence data from NCBI. You may also enter either of the sequences in their raw or FASTA format if Accession or GI#'s are not applicable. Alternatively, you may select one of the homologous pairs in the sample section below.

The program is limited to mRNA sequences less than 10,000 bases in length.

Quick-start tutorialProject background

Please cite: Menendez, C., Frees, S., and Bagga, P. (2012) QGRS-H Predictor: A Web Server for Predicting Homologous Quadruplex forming G-Rich Sequence Motifs in Nucleotide Sequences. Nucleic Acids Res. doi: 10.1093/nar/gks42240: W96-W103

or

Select a Sample Pairing
mRNA NameSpecies (Principal)Species (Comparison)Description
PPP2R5D Homo sapiensMus musculusConserved G-quadruplexes in 5' UTR, 3'UTR, and CDS. Gene is involved in cell division.
ACADM Homo sapiensPan troglodytesConserved G-quadruplexes near translation start site. Defects in this gene can lead to infantile death.
SNCAHomo sapiensMus musculusConserved G-quadruplexes in CDS. Gene involved in Parkinson's disease and dementia.
ADAM10Homo sapiensMus musculusG-quadruplexes in the 5’UTR known to inhibit translation. (Lammich et. al., 2011. J. Biol. Chem.)
YY1 Homo sapiensGallus gallusRegulatory G-quadruplexes in 5’UTR. Gene involved in tumorigenesis (Huang et. al., 2011. Nucl. Acids Res.)
NRASHomo sapiensBos taurusConserved G-quadruplexes in 5’- and 3’ UTRs of an oncogene (Kumari et. al., 2007. Nat. Chem Biol)
MYCNHomo sapiensRattus norvegicusConserved G-quadruplexes in the 5’-, 3-UTRs and CDS. Oncogene involved in neuroblastomas.
ABR / RHOGAP1AHomo sapiensDrosophila melanogasterConserved G-quadruplex in 3'UTR. Gene involved in morphogenesis.
ZNF219Homo sapiensRattus norvegicusNucleolin binding sites (G-quadruplexes) in UTRs and CDS. Regulatory G-quadruplexes in 5’UTR of a transcription factor gene. (Abdelmohsen et. al., 2011. Nucl. Acids Res.)
TERCHomo sapiensMacaca mulattaHighly conserved and stable regulatory G-quadruplex in the 5’region of telomerase RNA component. (Lattmann et. al., 2011. Nucl. Acids Res.)